CoV-GLUE | Mutations | Mutation
Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):
ORF | CodonNum | Mut | ORF1abMut | MutType | RefCodon | MutCodon | AACount | CodonCount | CodonProp | Genome Position |
ORF1ab/nsp2 | 91 | P91L | P271L | nonsyn | cCa | cTa | 5298 | 5295 | 0.999434 | 1076-1078 |
ORF1ab/nsp2 | 91 | P91L | P271L | nonsyn | cCA | cTG | 5298 | 2 | 0.000377501 | 1076-1078 |
ORF1ab/nsp2 | 91 | P91L | P271L | nonsyn | CCa | TTa | 5298 | 1 | 0.00018875 | 1076-1078 |
Details of the mutation P91L within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):
ORF | CodonNum | Mut | RefCodon | MutCodon | CodonCount | AACount | Lineage | LineageCodonProp |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 5295 | 5298 | All | 0.001013 |
ORF1ab/nsp2 | 91 | P91L | cCA | cTG | 2 | 5298 | All | 0 |
ORF1ab/nsp2 | 91 | P91L | CCa | TTa | 1 | 5298 | All | 0 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2517 | 2517 | AY.4 | 0.003918 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 632 | 632 | B.1.1.7 | 0.000566 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 463 | 463 | P.1.16 | 0.173214 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 306 | 306 | P.6 | 0.962264 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 242 | 242 | B.1.617.2 | 0.000911 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 129 | 129 | AY.34 | 0.012508 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 84 | 84 | AY.102 | 0.002227 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 81 | 81 | AY.44 | 0.000493 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 64 | 64 | AY.3 | 0.000637 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 64 | 64 | P.1 | 0.001008 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 53 | 54 | AY.43 | 0.000235 |
ORF1ab/nsp2 | 91 | P91L | CCa | TTa | 1 | 54 | AY.43 | 0.000004 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 38 | 38 | AY.103 | 0.000236 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 35 | 35 | AY.39 | 0.000865 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 31 | 31 | B.1.1.115 | 0.276786 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 29 | 29 | B.1.1.28 | 0.009026 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 26 | 26 | AY.26 | 0.000736 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 26 | 26 | AY.46.6 | 0.001877 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 24 | 24 | AY.61 | 0.002515 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 24 | 24 | B.1.258.17 | 0.002495 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 22 | 22 | B.1 | 0.000202 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 21 | 21 | B.1.234 | 0.002771 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 20 | 20 | B.1.1 | 0.000363 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 17 | 17 | AY.42 | 0.000684 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 17 | 17 | B.1.526 | 0.0004 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 16 | 16 | AY.25 | 0.000096 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 11 | 11 | B.1.1.317 | 0.004529 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 9 | 9 | B.1.177.81 | 0.001704 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 9 | 9 | B.1.429 | 0.000212 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 8 | 8 | AY.46 | 0.000833 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 8 | 8 | B.1.1.525 | 0.043716 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 8 | 8 | B.1.177 | 0.000105 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 7 | 7 | B.1.1.33 | 0.002946 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 7 | 7 | B.1.2 | 0.000062 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 7 | 7 | B.1.258 | 0.000466 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 6 | 6 | AY.113 | 0.000854 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 6 | 6 | B.1.1.222 | 0.001224 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 6 | 6 | B.1.177.12 | 0.00091 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 6 | 6 | B.1.621 | 0.000531 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 6 | 6 | P.1.14 | 0.000287 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 6 | 6 | P.1.17 | 0.000971 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 5 | 5 | A | 0.001935 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 5 | 5 | AY.39.1 | 0.000198 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 5 | 5 | AY.98.1 | 0.000242 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 5 | 5 | B.1.1.519 | 0.000199 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 5 | 5 | B.1.177.60 | 0.001092 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 5 | 5 | B.1.36.29 | 0.002587 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 4 | 4 | A.2 | 0.002647 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 4 | 4 | AY.20 | 0.000155 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 4 | 4 | AY.5 | 0.000083 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 4 | 4 | AY.75 | 0.000224 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 4 | 4 | B.1.243 | 0.000278 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 4 | 4 | B.1.36 | 0.000584 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 4 | 4 | C.14 | 0.017316 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 4 | 4 | Q.3 | 0.00058 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | AY.100 | 0.000138 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | AY.117 | 0.000254 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | AY.38 | 0.001498 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | AY.5.3 | 0.001012 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | AY.9.2 | 0.00011 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | AY.93 | 0.000819 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | B.1.1.214 | 0.000166 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | B.1.1.27 | 0.016949 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | B.1.221 | 0.000213 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | B.1.427 | 0.000151 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 3 | 3 | C.37 | 0.000348 |
ORF1ab/nsp2 | 91 | P91L | cCA | cTG | 2 | 2 | 0.111111 | |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.2 | 0.000712 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.23 | 0.000139 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.30 | 0.000791 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.4.2 | 0.000043 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.56 | 0.00321 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.69 | 0.000373 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.7 | 0.000392 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.74 | 0.000231 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.84 | 0.000875 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | AY.88 | 0.001768 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | B.1.131 | 0.017544 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | B.1.177.10 | 0.001756 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | B.1.356 | 0.003454 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | B.1.396 | 0.001411 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | B.1.459 | 0.008163 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | P.1.7 | 0.000639 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 2 | 2 | Q.4 | 0.00091 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | A.19 | 0.009434 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AH.3 | 0.003802 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.10 | 0.00053 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.35 | 0.000233 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.48 | 0.000465 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.59 | 0.00053 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.60 | 0.000938 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.89 | 0.004902 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.236 | 0.006897 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.326 | 0.001761 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.369 | 0.000446 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.448 | 0.002033 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.464 | 0.001473 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.484 | 0.1 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.1.518 | 0.006329 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.111 | 0.001175 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.147 | 0.000756 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.160.28 | 0.002924 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.177.23 | 0.003236 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.177.77 | 0.000726 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.177.82 | 0.000477 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.232 | 0.000537 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.326 | 0.007576 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.36.8 | 0.001 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.426 | 0.001009 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.597 | 0.00463 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.599 | 0.00365 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.605 | 0.005952 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.623 | 0.000536 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.636 | 0.006711 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | C.1 | 0.002392 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | C.35 | 0.000774 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | N.3 | 0.005814 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | N.5 | 0.001767 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp2 | 91 | P91L | cCa | cTa | 1 | 1 | Q.1 | 0.000126 |
CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk
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